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Translate spatialPopMixture functions to R #4

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wleoncio opened this issue Nov 9, 2020 · 0 comments
Open
37 of 54 tasks

Translate spatialPopMixture functions to R #4

wleoncio opened this issue Nov 9, 2020 · 0 comments
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@wleoncio
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enhancement New feature or request
Projects
Translate base BAPS to R
Milestone
Translated all ba...

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@wleoncio
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wleoncio commented Nov 9, 2020 •
edited

  • spatialPopMixture()
  • clearGlobalVars
  • computeRows(rowsFromInd, inds, ninds)
  • addToSummary(logml, partitionSummary, worstIndex)
  • arvoSeuraavaTila(muutokset, logml)
  • rand_disc(CDF)
  • updateGlobalVariables(ind, i2, diffInCounts, ...
  • updateGlobalVariables2(i1, i2, diffInCounts, ...
  • updateGlobalVariables3(muuttuvat, diffInCounts, ...
  • returnInOrder(inds, pop, globalRows, data, ...
  • laskeMuutokset(ind, globalRows, ...
  • laskeMuutokset2(i1, globalRows, ...
  • laskeMuutokset3(T2, inds2, globalRows, ...
  • laskeMuutokset5(inds, globalRows, data, ...
  • computeDiffInCounts(rows, max_noalle, nloci, data)
  • computePopulationLogml(pops, adjprior, priorTerm)
  • poistaTyhjatPopulaatiot(npops)
  • admixture_initialization(data_matrix,nclusters,Z)
  • cluster_own(Z,nclust)
  • clusternum(X, T, k, c)
  • handleData(raw_data)
  • newGetDistances(data, initRows)
  • getDistances(data_matrix,nclusters)
  • linkage(Y, method)
  • initPopNames(nameFile)
  • computeCounts(cliques, separators, npops, PARTITION)
  • computeDiffInCliqCounts(cliques, inds)
  • computeLogml(adjprior,priorTerm, ...
  • initializeGammaln(ninds, rowsFromInd, maxSize)
  • laskeOsaDist(inds2, dist, ninds)
  • testaaGenePopData(tiedostonNimi)
  • lueGenePopData(tiedostonNimi)
  • lueNimi(line)
  • selvitaDigitFormat(line)
  • rivinSisaltamienMjonojenLkm(line)
  • testaaPop(rivi)
  • addAlleles(data, ind, line, divider)
  • writeMixtureInfo(logml, globalRows, data, adjprior, ...
  • dispLine;
  • takeLine(description,width)
  • omaRound(num)
  • palautaYks(num,yks)
  • kldiv2str(div)
  • testaaOnkoKunnollinenBapsData(data)
  • testFastaData(inFile)
  • handleCoords(coordinates)
  • laskeKlikit(M, maxCliqSize,maxSepSize)
  • mysetdiff(A,B)
  • checkLogml(priorTerm, adjprior, cliques, separators)
  • findEmptyPop(npops)
  • testaaKoordinaatit(ninds, coordinates)
  • initialCounts(partition, data, npops, noalle)
  • findOutRowsFromInd(popnames, rows)
  • fiksaaPartitioYksiloTasolle(rows, rowsFromInd)
@wleoncio wleoncio added the enhancement New feature or request label Nov 9, 2020
@wleoncio wleoncio added this to the Next major release milestone Nov 9, 2020
@wleoncio wleoncio self-assigned this Nov 9, 2020
@wleoncio wleoncio added this to To do in Translate base BAPS to R via automation Nov 9, 2020
@wleoncio wleoncio modified the milestones: CRAN release, Translated all basic functions Sep 3, 2021
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Labels
enhancement New feature or request
Projects
Translate base BAPS to R
  
To do
Milestone
Translated all basic functions
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